|
| Status |
Public on Oct 10, 2014 |
| Title |
RABV-infected BV-2 12hpi, bio rep2 |
| Sample type |
RNA |
| |
|
| Source name |
Microglia infected CVS-11 12hpi
|
| Organism |
Mus musculus |
| Characteristics |
cell line: BV-2
cell type: cultured microglial cells
treatment: infection with rabies virus CVS-11
time: 12 hpi
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with the mirVana™ miRNA Isolation Kit (Cat. No. 1561, Ambion, USA). We performed procedure FⅠin the Total RNA Isolation Procedure. Optical density was measured by NanoDrop ND-1000. The ratio of absorbance at 260 nm and 280 nm provides an estimate of RNA purity. The RIN score was given by Agilent RNA 6000 Nano Assay. The RNA Integrity Number (RIN) algorithm assigns a 1 to 10 RIN score, where level 10 RNA is completely intact. For the sake of good microarray results, an RIN score should be above 7.
|
| Label |
Cy5
|
| Label protocol |
Labeling was performed by the Phalanx Biotech Group, Hsinchu, Taiwan. The sample preparation reagent used for this service is the Ambion MessageAmp aRNA kit (Cat. No. 1753) or the Ambion amino allyl cDNA kit (Cat. No. 1705). Optical density was measured by NanoDrop ND-1000. The ratio of absorbance at 260 nm and 280 nm provides an estimate of RNA purity. Ratios between 1.8 and 2.2 indicate a pure sample. The reactive amino group of 5-(3-aminoallyl)-UTP/5-(3-aminoallyl)-dUTP was used to conjugate the purified aRNA/cDNA with the NHS-CyDye. Labeling efficiency can be calculated by the concentration of CyDye and aRNA/cDNA measured by NanoDrop ND-1000. For the sake of good microarray results, the labeling efficiency should be above 10. See http://www.phalanx.com.tw/.
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| |
|
| Hybridization protocol |
Hybridization was performed by the Phalanx Biotech Group, Hsinchu, Taiwan, following their standard operating protocol. See http://www.phalanx.com.tw/.
|
| Scan protocol |
Scanning was performed by the Phalanx Biotech Group, Hsinchu, Taiwan, following their standard operating protocol. See http://www.phalanx.com.tw/.
|
| Description |
T1_H002
Second of two biological replicates.
|
| Data processing |
For the raw dataset, the Cy5 fluorescent intensity of each spot was analyzed by GenePix 4.1 software (Molecular Devices, CA, USA). The expression data were normalized using a variance stabilizing method VSN (Huber et al. Bioinformatics 18 Suppl 1: S96-104) in Bioconductor (http://www.bioconductor.org).
|
| |
|
| Submission date |
Feb 09, 2012 |
| Last update date |
Oct 10, 2014 |
| Contact name |
Pingsen Zhao |
| E-mail(s) |
zhaopingsen@hotmail.com
|
| Organization name |
Institute of Military Veterinary Academy of Military Medical Sciences
|
| Department |
The research centre for canine diseases
|
| Lab |
Lab of virology
|
| Street address |
No. 666 Liuying Xilu
|
| City |
Changchun |
| State/province |
Jilin |
| ZIP/Postal code |
130122 |
| Country |
China |
| |
|
| Platform ID |
GPL13692 |
| Series (2) |
| GSE35684 |
Genome-wide identification and analysis of gene expression in BV-2, a murine microglial cell line, infected with rabies virus CVS-11 (Challenge virus standard) |
| GSE35707 |
Genome-wide identification and analysis of gene and microRNA expression in BV-2, a murine microglial cell line, infected with rabies virus CVS-11 |
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